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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ), 'gf_id' => 'HOM05D001121', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001121' ), 'data_identifier' => 'HOM05D001121', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001121', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '549', 'num_species' => '96' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p15550' => 'bna', 'A03p55120' => 'bna', 'A08p06360' => 'bna', 'A08p21560' => 'bna', 'A10p15520' => 'bna', 'Aa31LG11G510' => 'aar', 'Aa31LG7G10260' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_344.4403' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4404' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4405' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_344.4477' => 'aag', 'Actinidia00394' => 'ach', 'Actinidia10179' => 'ach', 'Actinidia10180' => 'ach', 'Actinidia16093' => 'ach', 'Actinidia22675' => 'ach', 'Actinidia22676' => 'ach', 'Actinidia34379' => 'ach', 'Ah.06g194300' => 'amhyb', 'Ah.08g221160' => 'amhyb', 'Ah.14g085500' => 'amhyb', 'AL7G29050' => 'aly', 'AL8G35030' => 'aly', 'Aqoxy2G02787' => 'aox', 'Aqoxy2G02789' => 'aox', 'Aqoxy4G02583' => 'aox', 'arahy.Tifrunner.gnm1.ann1.05M0GB' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8Z16ZA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G7NFM2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H3R2DZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.H6JZ6S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N888SE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.WD7ZBJ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.X6S8BQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YN4HAV' => 'arhy', 'AT4G24220' => 'ath', 'AT5G58750' => 'ath', 'ATR0618G262' => 'atr', 'ATR0618G417' => 'atr', 'ATR0693G310' => 'atr', 'ATR0693G335' => 'atr', 'ATR0706G125' => 'atr', 'ATR0706G270' => 'atr', 'Atru.chr3.4224' => 'acertr', 'Atru.chr4.2966' => 'acertr', 'Atru.chr4.2967' => 'acertr', 'Atru.chr4.2968' => 'acertr', 'Atru.chr4.2969' => 'acertr', 'Atru.chr5.2419' => 'acertr', 'AUR62000113' => 'cqu', 'AUR62001649' => 'cqu', 'AUR62016139' => 'cqu', 'AUR62016140' => 'cqu', 'AUR62019292' => 'cqu', 'AUR62020127' => 'cqu', 'AUR62027364' => 'cqu', 'AUR62031282' => 'cqu', 'AUR62042954' => 'cqu', 'AUR62043774' => 'cqu', 'BcaB03g12428' => 'bca', 'BcaC04g19836' => 'bca', 'BcaC06g32899' => 'bca', 'BcaC06g32903' => 'bca', 'BcaC07g37292' => 'bca', 'BcaC07g38138' => 'bca', 'BcaC09g50895' => 'bca', 'BcaNung01128' => 'bca', 'BolC7t45839H' => 'bol', 'BolC8t47567H' => 'bol', 'BolC8t48564H' => 'bol', 'BolC9t57943H' => 'bol', 'BraA01t01494Z' => 'bra', 'BraA03t14572Z' => 'bra', 'BraA08t34103Z' => 'bra', 'BraA10t43681Z' => 'bra', 'C01p19470' => 'bna', 'C07p53450' => 'bna', 'C08p07250' => 'bna', 'C09p50830' => 'bna', 'CAN.G138.15' => 'can', 'CAN.G1479.1' => 'can', 'CAN.G170.33' => 'can', 'CAN.G170.36' => 'can', 'CAN.G362.32' => 'can', 'CAN.G602.11' => 'can', 'CANSAT25G0737' => 'cansat', 'CANSAT54G1790' => 'cansat', 'CANSAT78G1181' => 'cansat', 'CARHR231640' => 'chi', 'CARHR272660' => 'chi', 'Carub.0007s1684' => 'cru', 'Carub.0007s1685' => 'cru', 'Carub.0008s1937' => 'cru', 'Ca_15916_v3' => 'car', 'Ca_15917_v3' => 'car', 'Ca_21457_v3' => 'car', 'Cc02_g19570' => 'ccan', 'Cc10_g05500' => 'ccan', 'Cc10_g05510' => 'ccan', 'CDE04G2205' => 'cde', 'CDE05G0813' => 'cde', 'CDE07G1890' => 'cde', 'Cfa004622' => 'cfa', 'Cfa011693' => 'cfa', 'Cfa018018' => 'cfa', 'Cfa018021' => 'cfa', 'Cfa018022' => 'cfa', 'Ciclev10001370m.g' => 'ccl', 'Ciclev10001374m.g' => 'ccl', 'Ciclev10001388m.g' => 'ccl', 'Ciclev10001393m.g' => 'ccl', 'Ciclev10001412m.g' => 'ccl', 'Ciclev10001414m.g' => 'ccl', 'Ciclev10001420m.g' => 'ccl', 'Ciclev10001422m.g' => 'ccl', 'Ciclev10001445m.g' => 'ccl', 'Ciclev10001629m.g' => 'ccl', 'Ciclev10003867m.g' => 'ccl', 'Ciclev10003925m.g' => 'ccl', 'Ciclev10006945m.g' => 'ccl', 'Ciclev10007071m.g' => 'ccl', 'Ciclev10013989m.g' => 'ccl', 'Ciclev10020568m.g' => 'ccl', 'Ciclev10020613m.g' => 'ccl', 'Ciclev10023804m.g' => 'ccl', 'Ciclev10030323m.g' => 'ccl', 'CiPaw.05G014800' => 'cil', 'CiPaw.13G077900' => 'cil', 'CiPaw.15G047000' => 'cil', 'CiPaw.15G047100' => 'cil', 'CiPaw.15G047200' => 'cil', 'CiPaw.16G033600' => 'cil', 'CiPaw.16G033700' => 'cil', 'CiPaw.16G033800' => 'cil', 'CiPaw.16G034100' => 'cil', 'CiPaw.16G034200' => 'cil', 'CiPaw.16G034400' => 'cil', 'ClCG03G000790' => 'cla', 'ClCG05G020410' => 'cla', 'COL.COLO4_16520' => 'col', 'COL.COLO4_16522' => 'col', 'COL.COLO4_19154' => 'col', 'COL.COLO4_28545' => 'col', 'COL.COLO4_28546' => 'col', 'COL.COLO4_32548' => 'col', 'COL.COLO4_34661' => 'col', 'Cpa.g.sc1071.1' => 'cpa', 'Cpa.g.sc112.26' => 'cpa', 'Cpa.g.sc21.119' => 'cpa', 'CsaV3_1G036150' => 'csa', 'CsaV3_3G028370' => 'csa', 'CSS0009450' => 'camsi', 'CSS0013466' => 'camsi', 'CSS0021139' => 'camsi', 'CSS0028311' => 'camsi', 'CSS0033379' => 'camsi', 'CSS0037414' => 'camsi', 'CSS0049105' => 'camsi', 'DCAR_001668' => 'dca', 'DCAR_003610' => 'dca', 'DCAR_021967' => 'dca', 'DCAR_021968' => 'dca', 'Dinv01276' => 'din', 'Dinv01278' => 'din', 'Dinv08942' => 'din', 'Dinv14440' => 'din', 'Dinv39237' => 'din', 'Dinv42214' => 'din', 'Dinv44984' => 'din', 'Dinv44985' => 'din', 'Dinv44986' => 'din', 'Duzib041G0623' => 'dzi', 'Duzib116G0165' => 'dzi', 'Duzib132G1251' => 'dzi', 'Duzib151G1065' => 'dzi', 'Duzib168G0535' => 'dzi', 'Duzib213G0088' => 'dzi', 'ECA233G1522' => 'eca', 'ECA234G1357' => 'eca', 'ECA234G1882' => 'eca', 'ECA234G3714' => 'eca', 'ECA234G3915' => 'eca', 'ECA236G3089' => 'eca', 'ECA247G1878' => 'eca', 'EL10Ac3g05451' => 'bvu', 'EL10Ac3g05485' => 'bvu', 'EL10Ac4g10261' => 'bvu', 'EL10Ac4g10277' => 'bvu', 'EL10Ac7g16164' => 'bvu', 'EL10Ac8g19354' => 'bvu', 'Eucgr.B02257' => 'egr', 'Eucgr.F00129' => 'egr', 'FAN04G3115' => 'fan', 'FAN07G0171' => 'fan', 'FAN08G1212' => 'fan', 'FAN11G0023' => 'fan', 'FAN13G0313' => 'fan', 'FAN15G1172' => 'fan', 'FAN16G1254' => 'fan', 'FAN18G4393' => 'fan', 'FAN20G1658' => 'fan', 'FAN21G0423' => 'fan', 'FAN22G0271' => 'fan', 'FAN24G3541' => 'fan', 'FAN27G2013' => 'fan', 'FvH4_2g04580' => 'fve', 'FvH4_3g38520' => 'fve', 'FvH4_4g06071' => 'fve', 'FvH4_5g25130' => 'fve', 'Glyma.06G044600' => 'gma', 'Glyma.07G242400' => 'gma', 'Glyma.11G178800' => 'gma', 'Glyma.14G087400' => 'gma', 'Glyma.18G063300' => 'gma', 'Gohir.A02G081504' => 'ghi', 'Gohir.A03G184300' => 'ghi', 'Gohir.A05G207600' => 'ghi', 'Gohir.A05G207700' => 'ghi', 'Gohir.A09G064800' => 'ghi', 'Gohir.A09G064900' => 'ghi', 'Gohir.A12G181000' => 'ghi', 'Gohir.A13G199100' => 'ghi', 'Gohir.D02G089500' => 'ghi', 'Gohir.D02G205800' => 'ghi', 'Gohir.D05G211000' => 'ghi', 'Gohir.D05G211100' => 'ghi', 'Gohir.D09G063700' => 'ghi', 'Gohir.D09G063900' => 'ghi', 'Gohir.D09G065800' => 'ghi', 'Gohir.D09G065900' => 'ghi', 'Gohir.D12G183700' => 'ghi', 'Gohir.D13G204600' => 'ghi', 'Gorai.005G100200' => 'gra', 'Gorai.005G233200' => 'gra', 'Gorai.006G078700' => 'gra', 'Gorai.008G197000' => 'gra', 'Gorai.009G217500' => 'gra', 'Gorai.009G217600' => 'gra', 'Gorai.013G233500' => 'gra', 'GSVIVG01001687001' => 'vvi', 'GSVIVG01009379001' => 'vvi', 'GSVIVG01035035001' => 'vvi', 'GSVIVG01037879001' => 'vvi', 'HanXRQChr08g0229421' => 'han', 'HanXRQChr10g0297861' => 'han', 'HanXRQChr14g0431321' => 'han', 'HanXRQChr14g0438241' => 'han', 'HanXRQChr14g0450631' => 'han', 'HanXRQChr14g0450651' => 'han', 'HanXRQChr14g0450661' => 'han', 'HanXRQChr14g0450871' => 'han', 'HanXRQChr14g0450881' => 'han', 'HanXRQChr15g0468401' => 'han', 'HanXRQChr16g0514941' => 'han', 'Haze_05934' => 'cav', 'Haze_10217' => 'cav', 'Haze_18108' => 'cav', 'Haze_18109' => 'cav', 'Haze_18110' => 'cav', 'Haze_24318' => 'cav', 'Haze_26973' => 'cav', 'Haze_26974' => 'cav', 'Hma1.2p1_0081F.1_g042330' => 'hma', 'Hma1.2p1_0081F.1_g042340' => 'hma', 'Hma1.2p1_0310F.1_g120995' => 'hma', 'Hma1.2p1_0923F.1_g237040' => 'hma', 'Hma1.2p1_0923F.1_g237050' => 'hma', 'Hma1.2p1_3153F.1_g333310' => 'hma', 'Hma1.2p1_3222F.1_g334080' => 'hma', 'HPP92_006065' => 'vpl', 'HPP92_013397' => 'vpl', 'HPP92_013644' => 'vpl', 'Hund22035' => 'sun', 'Lalb_Chr08g0245471' => 'lal', 'Lalb_Chr11g0062811' => 'lal', 'Lalb_Chr14g0368361' => 'lal', 'Lalb_Chr14g0368371' => 'lal', 'Lalb_Chr18g0050911' => 'lal', 'Lalb_Chr23g0267401' => 'lal', 'Lj1g0001556' => 'lja', 'Lj1g0004874' => 'lja', 'Lj1P138T38' => 'lonja', 'Lj3A828T77' => 'lonja', 'Lj3A828T78' => 'lonja', 'Lj3P663T4' => 'lonja', 'Lj4A68T46' => 'lonja', 'Lj4C68T6' => 'lonja', 'Lj4C68T7' => 'lonja', 'Lj4g0003724' => 'lja', 'Lj5A217T92' => 'lonja', 'Lj5C217T7' => 'lonja', 'Lj6g0023051' => 'lja', 'Lsat_1_v5_gn_2_22481' => 'lsa', 'Lsat_1_v5_gn_2_22501' => 'lsa', 'Lsat_1_v5_gn_2_22780' => 'lsa', 'Lsat_1_v5_gn_2_23021' => 'lsa', 'Lsat_1_v5_gn_5_115221' => 'lsa', 'Lsat_1_v5_gn_7_116300' => 'lsa', 'Lsat_1_v5_gn_9_19160' => 'lsa', 'Manes.02G119700' => 'mes', 'Manes.05G180200' => 'mes', 'Manes.10G074500' => 'mes', 'Manes.11G119800' => 'mes', 'Manes.11G119900' => 'mes', 'Manes.11G120000' => 'mes', 'Mapoly0190s0002' => 'mpo', 'MBI13_g29523_MAGBIO' => 'mbi', 'MBI16_g01009_MAGBIO' => 'mbi', 'MBI16_g01010_MAGBIO' => 'mbi', 'MBI16_g03326_MAGBIO' => 'mbi', 'MD03G1071000' => 'mdo', 'MD05G1094500' => 'mdo', 'MD05G1108300' => 'mdo', 'MD08G1088400' => 'mdo', 'MD11G1075000' => 'mdo', 'MD15G1073200' => 'mdo', 'MD15G1073300' => 'mdo', 'MD15G1073400' => 'mdo', 'MD15G1073500' => 'mdo', 'MD15G1073600' => 'mdo', 'Medtr1g018580' => 'mtr', 'Medtr1g018590' => 'mtr', 'Medtr1g018610' => 'mtr', 'Medtr3g013890' => 'mtr', 'Medtr3g102730' => 'mtr', 'Medtr3g102760' => 'mtr', 'Medtr3g102770' => 'mtr', 'Medtr3g463660' => 'mtr', 'Medtr4g073090' => 'mtr', 'Medtr4g121570' => 'mtr', 'Medtr4g121590' => 'mtr', 'MELO3C012842.2' => 'cme', 'MELO3C020553.2' => 'cme', 'Migut.B00416' => 'egut', 'Migut.B00417' => 'egut', 'Migut.N00794' => 'egut', 'MSTRG.1042' => 'ama', 'MSTRG.1043' => 'ama', 'MSTRG.16694' => 'ama', 'MSTRG.20203' => 'ama', 'Nitab4.5_0000260g0040' => 'nta', 'Nitab4.5_0002017g0050' => 'nta', 'Nitab4.5_0004396g0020' => 'nta', 'Nitab4.5_0004396g0030' => 'nta', 'Nitab4.5_0005299g0020' => 'nta', 'Nitab4.5_0009836g0010' => 'nta', 'Nitab4.5_0009836g0020' => 'nta', 'Nn1g01273' => 'nnu', 'Nn1g04639' => 'nnu', 'Nn3g17352' => 'nnu', 'Nn3g21652' => 'nnu', 'Nn5g28187' => 'nnu', 'Nn5g30489' => 'nnu', 'Nn8g39971' => 'nnu', 'Oeu011145.1' => 'oeu', 'Oeu012051.1' => 'oeu', 'Oeu022076.1' => 'oeu', 'Oeu037262.1' => 'oeu', 'Oeu044263.1' => 'oeu', 'Oeu056141.1' => 'oeu', 'Os03g0422600' => 'osa', 'Os03g0436400' => 'osa', 'Os07g0601600' => 'osa', 'Os11g0351555' => 'osa', 'Peaxi162Scf00003g01014' => 'pax', 'Peaxi162Scf00003g01015' => 'pax', 'Peaxi162Scf00003g01016' => 'pax', 'Peaxi162Scf00003g02544' => 'pax', 'Peaxi162Scf00003g02545' => 'pax', 'Peaxi162Scf00021g00085' => 'pax', 'Peaxi162Scf00021g00086' => 'pax', 'Peaxi162Scf00305g00091' => 'pax', 'Peaxi162Scf00774g00013' => 'pax', 'Peaxi162Scf01604g10016' => 'pax', 'Peaxi162Scf03863g00003' => 'pax', 'PGR004G1551' => 'pgr', 'PGR083G0074' => 'pgr', 'PGR102G0608' => 'pgr', 'PGSC0003DMG400005459' => 'stu', 'PGSC0003DMG400009850' => 'stu', 'PGSC0003DMG400015119' => 'stu', 'PGSC0003DMG400027778' => 'stu', 'Phvul.003G111200' => 'pvu', 'Phvul.003G111300' => 'pvu', 'Phvul.003G142200' => 'pvu', 'Phvul.006G067800' => 'pvu', 'Phvul.009G070100' => 'pvu', 'Potri.002G120600' => 'ptr', 'Potri.002G120700' => 'ptr', 'Potri.003G134500' => 'ptr', 'Potri.009G045700' => 'ptr', 'Potri.014G019300' => 'ptr', 'Potri.014G019400' => 'ptr', 'Potri.014G019500' => 'ptr', 'Potri.014G019600' => 'ptr', 'Potri.014G019700' => 'ptr', 'Potri.017G030400' => 'ptr', 'Potri.017G030600' => 'ptr', 'Potri.017G030700' => 'ptr', 'Pp3c22_7050' => 'ppa', 'Prupe.1G426100' => 'ppe', 'Prupe.1G426200' => 'ppe', 'Prupe.1G426300' => 'ppe', 'Prupe.1G426400' => 'ppe', 'Prupe.6G057800' => 'ppe', 'Prupe.8G139300' => 'ppe', 'Prupe.8G139400' => 'ppe', 'Psat5g039320' => 'psa', 'Psat5g039360' => 'psa', 'Psat5g158840' => 'psa', 'PSO339G0032' => 'pso', 'PSO384G0680' => 'pso', 'PSO541G2279' => 'pso', 'QL01p038217' => 'qlo', 'QL02p002694' => 'qlo', 'QL02p002697' => 'qlo', 'QL02p002702' => 'qlo', 'QL02p002725' => 'qlo', 'QL02p002738' => 'qlo', 'QL02p002741' => 'qlo', 'QL02p002747' => 'qlo', 'QL02p002769' => 'qlo', 'QL02p002789' => 'qlo', 'QL02p002822' => 'qlo', 'QL06p011486' => 'qlo', 'QL10p045473' => 'qlo', 'QL10p048620' => 'qlo', 'QL10p048629' => 'qlo', 'QL10p048651' => 'qlo', 'QL10p048669' => 'qlo', 'QL10p048699' => 'qlo', 'QL11p032069' => 'qlo', 'QL12p005393' => 'qlo', 'RcHm_v2.0_Chr5g0057341' => 'rch', 'RcHm_v2.0_Chr5g0069421' => 'rch', 'RcHm_v2.0_Chr6g0254161' => 'rch', 'RcHm_v2.0_Chr6g0254171' => 'rch', 'RcHm_v2.0_Chr6g0254181' => 'rch', 'RcHm_v2.0_Chr6g0254191' => 'rch', 'RcHm_v2.0_Chr6g0309171' => 'rch', 'RcHm_v2.0_Chr6g0309181' => 'rch', 'RcHm_v2.0_Chr6g0309191' => 'rch', 'RcHm_v2.0_Chr6g0309201' => 'rch', 'Rhsim06G0059400' => 'rsi', 'Rhsim06G0059500' => 'rsi', 'Rhsim06G0059600' => 'rsi', 'Rhsim11G0155300' => 'rsi', 'Rhsim13G0069700' => 'rsi', 'RhsimUnG0126500' => 'rsi', 'Sabra02G0094800' => 'sbr', 'Sabra02G0094900' => 'sbr', 'Sabra10G0166700' => 'sbr', 'Sabra14G0012600' => 'sbr', 'Sabra14G0012700' => 'sbr', 'Sabra14G0012800' => 'sbr', 'Sabra14G0012900' => 'sbr', 'Sabra17G0019700' => 'sbr', 'Sabra17G0019900' => 'sbr', 'SalBow2G0200' => 'sbo', 'Sc07g0007480' => 'sci', 'Sc07g0007500' => 'sci', 'Sc15g0005530' => 'sci', 'Sc15g0005540' => 'sci', 'Sc15g0005780' => 'sci', 'Sc15g0005790' => 'sci', 'Sc18g0003670' => 'sci', 'Sc21g0006310' => 'sci', 'Sed0016701' => 'sed', 'Sed0020836' => 'sed', 'SEGI_05185' => 'sgi', 'SEGI_11653' => 'sgi', 'SEGI_17521' => 'sgi', 'SEGI_28813' => 'sgi', 'SEGI_38054' => 'sgi', 'SEGI_39263' => 'sgi', 'SEGI_41246' => 'sgi', 'SGA_v2.0_scaffold120G32914' => 'sas', 'SGA_v2.0_scaffold214G42280' => 'sas', 'SGA_v2.0_scaffold225G43005' => 'sas', 'SGA_v2.0_scaffold43G16256' => 'sas', 'SHI08370' => 'shi', 'SMO195G0027' => 'smo', 'SMO288G0004' => 'smo', 'SMO343G0005' => 'smo', 'SMO352G0040' => 'smo', 'SMO352G0079' => 'smo', 'SMO367G0261' => 'smo', 'SMO367G0478' => 'smo', 'SMO367G0930' => 'smo', 'Solyc01g091670.3' => 'sly', 'Solyc10g049600.3' => 'sly', 'Solyc10g049620.2' => 'sly', 'Sopen01g037440' => 'spe', 'Sopen10g020950' => 'spe', 'Sopen10g020960' => 'spe', 'Sp6g20440' => 'spa', 'Sp7g22200' => 'spa', 'TAR365G0208' => 'tar', 'TAR365G1021' => 'tar', 'TAR381G1542' => 'tar', 'TAR623G0085' => 'tar', 'TAR625G1090' => 'tar', 'TAR628G0986' => 'tar', 'TAR633G2513' => 'tar', 'THA.LOC104799397' => 'tha', 'THA.LOC104799795' => 'tha', 'THA.LOC104800325' => 'tha', 'THA.LOC104807087' => 'tha', 'THA.LOC104825749' => 'tha', 'THA.LOC104825751' => 'tha', 'Thecc.02G113000' => 'tca', 'Thecc.07G175900' => 'tca', 'Thecc.08G092500' => 'tca', 'Thecc.09G302100' => 'tca', 'Thhalv10015494m.g' => 'esa', 'Thhalv10025425m.g' => 'esa', 'TPR.G16841' => 'tpr', 'TPR.G21177' => 'tpr', 'TPR.G33682' => 'tpr', 'TPR.G33690' => 'tpr', 'TPR.G33716' => 'tpr', 'TPR.G33727' => 'tpr', 'TPR.G3748' => 'tpr', 'TPR.G3803' => 'tpr', 'TPR.G387' => 'tpr', 'TPR.G40535' => 'tpr', 'TWI09G1079' => 'twi', 'TWI12G1206' => 'twi', 'TWI15G0340' => 'twi', 'TWI15G0453' => 'twi', 'TWI15G0651' => 'twi', 'TWI15G0938' => 'twi', 'TWI31G0133' => 'twi', 'TWI56G0573' => 'twi', 'TWI79G1451' => 'twi', 'unitig_578.g16548' => 'ugi', 'unitig_744.g24219' => 'ugi', 'vmacro01982' => 'vma', 'vmacro02963' => 'vma', 'vmacro21457' => 'vma', 'vmacro21458' => 'vma', 'vmacro21459' => 'vma', 'VMungo0540G1687' => 'vmu', 'VMungo1215G2101' => 'vmu', 'VMungo1289G0001' => 'vmu', 'VMungo1309G1310' => 'vmu', 'Zm00001eb020560' => 'zma', 'Zm00001eb020570' => 'zma', 'Zm00001eb020590' => 'zma' ) $gf_id = 'HOM05D001121' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001121' ) $data_identifier = 'HOM05D001121' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 9, 'aar' => (int) 2, 'aag' => (int) 4, 'ach' => (int) 7, 'amhyb' => (int) 3, 'aly' => (int) 2, 'aox' => (int) 3, 'arhy' => (int) 9, 'ath' => (int) 2, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 10, 'bca' => (int) 8, 'bol' => (int) 4, 'bra' => (int) 4, 'can' => (int) 6, 'cansat' => (int) 3, 'chi' => (int) 2, 'cru' => (int) 3, 'car' => (int) 3, 'ccan' => (int) 3, 'cde' => (int) 3, 'cfa' => (int) 5, 'ccl' => (int) 19, 'cil' => (int) 11, 'cla' => (int) 2, 'col' => (int) 7, 'cpa' => (int) 3, 'csa' => (int) 2, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 9, 'dzi' => (int) 6, 'eca' => (int) 7, 'bvu' => (int) 6, 'egr' => (int) 2, 'fan' => (int) 13, 'fve' => (int) 4, 'gma' => (int) 5, 'ghi' => (int) 18, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 11, 'cav' => (int) 8, 'hma' => (int) 7, 'vpl' => (int) 3, 'sun' => (int) 1, 'lal' => (int) 6, 'lja' => (int) 4, 'lonja' => (int) 9, 'lsa' => (int) 7, 'mes' => (int) 6, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mdo' => (int) 10, 'mtr' => (int) 11, 'cme' => (int) 2, 'egut' => (int) 3, 'ama' => (int) 4, 'nta' => (int) 7, 'nnu' => (int) 7, 'oeu' => (int) 6, 'osa' => (int) 4, 'pax' => (int) 11, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 12, 'ppa' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 3, 'pso' => (int) 3, 'qlo' => (int) 20, 'rch' => (int) 10, 'rsi' => (int) 6, 'sbr' => (int) 9, 'sbo' => (int) 1, 'sci' => (int) 8, 'sed' => (int) 2, 'sgi' => (int) 7, 'sas' => (int) 4, 'shi' => (int) 1, 'smo' => (int) 8, 'sly' => (int) 3, 'spe' => (int) 3, 'spa' => (int) 2, 'tar' => (int) 7, 'tha' => (int) 6, 'tca' => (int) 4, 'esa' => (int) 2, 'tpr' => (int) 10, 'twi' => (int) 9, 'ugi' => (int) 2, 'vma' => (int) 5, 'vmu' => (int) 4, 'zma' => (int) 3 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb020590' $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